import * as DG from 'datagrok-api/dg';
import { IMonomerLibBase } from '../types/monomer-library';
import { ISeqHandler } from './macromolecule/seq-handler';
import { MolfileWithMap } from '../monomer-works/types';
import { RDModule, RDMol } from '@datagrok-libraries/chem-meta/src/rdkit-api';
export type ToAtomicLevelRes = {
    molCol: DG.Column<string> | null;
    warnings: string[];
};
export interface IHelmToMolfileConverter {
    convertToSmiles(helmCol: DG.Column<string>): DG.Column<string>;
    molV3KtoMolV3KOCL(molV3k: string): string;
    getMolV3000ViaOCL(beautifiedMols: (RDMol | null)[], columnName: string): DG.Column<string>;
    convertToRdKitBeautifiedMolfileColumn(helmCol: DG.Column<string>, chiralityEngine: boolean, rdKitModule: RDModule, monomerLib: IMonomerLibBase): DG.Column<string>;
    convertToMolfileV3KColumn(helmCol: DG.Column<string>): DG.Column<string>;
    convertToMolfileV3K(helmList: string[]): MolfileWithMap[];
}
export interface ISeqHelper {
    /**
     * @param helmCol {DG.Column<string>} Macromolecules in Helm format
     * @param chiralityEngine {boolean} [true] Use chirality engine for molecule visualization
     * @param highlight {boolean} [true] Generates molHighlightCol of result
     * @param overrideMonomerLib {IMonomerLibBase} [null] Override monomer library for monomers from reactions
     **/
    helmToAtomicLevel(helmCol: DG.Column<string>, chiralityEngine?: boolean, highlight?: boolean, overrideMonomerLib?: IMonomerLibBase): Promise<ToAtomicLevelRes>;
    helmToAtomicLevelSingle(helm: string, converter: IHelmToMolfileConverter, chiralityEngine?: boolean, beautifyMol?: boolean): MolfileWithMap;
    getSeqHandler(seqCol: DG.Column<string>): ISeqHandler;
    getSeqMonomers(seqCol: DG.Column<string>): string[];
    setUnitsToFastaColumn(sh: ISeqHandler): void;
    setUnitsToSeparatorColumn(sh: ISeqHandler): void;
    setUnitsToHelmColumn(sh: ISeqHandler): void;
    getHelmToMolfileConverter(monomerLib: IMonomerLibBase): Promise<IHelmToMolfileConverter>;
}
export declare function getSeqHelper(): Promise<ISeqHelper>;
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